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(-) Description

Title :  STRUCTURE OF AN INACTIVE LACTONASE FROM GEOBACILLUS KAUSTOPHILUS WITH BOUND N-BUTYRYL-DL-HOMOSERINE LACTONE
 
Authors :  B. Xue, J. Y. Chow, A. Tung, R. C. Robinson
Date :  22 Aug 10  (Deposition) - 27 Oct 10  (Release) - 26 Mar 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.60
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  (Beta/Alpha)8 Barrel, Lactonase, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Y. Chow, B. Xue, K. H. Lee, A. Tung, L. Wu, R. C. Robinson, W. S. Yew
Directed Evolution Of A Thermostable Quorum-Quenching Lactonase From The Amidohydrolase Superfamily
J. Biol. Chem. V. 285 40911 2010
PubMed-ID: 20980257  |  Reference-DOI: 10.1074/JBC.M110.177139

(-) Compounds

Molecule 1 - PHOSPHOTRIESTERASE
    Chains: A
    EC Number: 3.5.-.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET-15B, MODIFIED
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: GK1506
    Organism Scientific: GEOBACILLUS KAUSTOPHILUS
    Organism Taxid: 1462
    Strain: HTA426

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (2x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 4)

Asymmetric Unit (4, 4)
No.NameCountTypeFull Name
1FE1Ligand/IonFE (III) ION
2HL41Ligand/IonN-[(3S)-2-OXOTETRAHYDROFURAN-3-YL]BUTANAMIDE
3KCX1Mod. Amino AcidLYSINE NZ-CARBOXYLIC ACID
4ZN1Ligand/IonZINC ION
Biological Unit 1 (2, 4)
No.NameCountTypeFull Name
1FE-1Ligand/IonFE (III) ION
2HL42Ligand/IonN-[(3S)-2-OXOTETRAHYDROFURAN-3-YL]BUTANAMIDE
3KCX2Mod. Amino AcidLYSINE NZ-CARBOXYLIC ACID
4ZN-1Ligand/IonZINC ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:23 , HIS A:25 , KCX A:145 , ASN A:266 , FE A:402 , HOH A:466BINDING SITE FOR RESIDUE ZN A 401
2AC2SOFTWAREKCX A:145 , HIS A:178 , HIS A:206 , ARG A:230 , ZN A:401 , HOH A:466BINDING SITE FOR RESIDUE FE A 402
3AC3SOFTWAREPHE A:28 , TYR A:30 , ARG A:230 , MET A:236 , ASN A:266 , VAL A:268 , TRP A:271 , HOH A:466BINDING SITE FOR RESIDUE HL4 A 327

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3OJG)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3OJG)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3OJG)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3OJG)

(-) Exons   (0, 0)

(no "Exon" information available for 3OJG)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:323
 aligned with Q5KZU5_GEOKA | Q5KZU5 from UniProtKB/TrEMBL  Length:326

    Alignment length:323
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322   
         Q5KZU5_GEOKA     3 EMVETVCGPVPVEQLGKTLIHEHFLFGYPGFQGDVTRGTFREDESLRVAVEAAEKMKRHGIQTVVDPTPNDCGRNPAFLRRVAEETGLNIICATGYYYEGEGAPPYFQFRRLLGTAEDDIYDMFMAELTEGIADTGIKAGVIKLASSKGRITEYEKMFFRAAARAQKETGAVIITHTQEGTMGPEQAAYLLEHGADPKKIVIGHMCGNTDPDYHRKTLAYGVYIAFDRFGIQGMVGAPTDEERVRTLLALLRDGYEKQIMLSHDTVNVWLGRPFTLPEPFAEMMKNWHVEHLFVNIIPALKNEGIRDEVLEQMFIGNPAALFS 325
               SCOP domains d3ojga_ A: automated matches                                                                                                                                                                                                                                                                                                        SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------PTE-3ojgA01 A:12-325                                                                                                                                                                                                                                                                                                       Pfam domains
         Sec.struct. author .eeee..eeee.hhh..ee...eeee...hhhhhh.....hhhhhhhhhhhhhhhhhhh...eeee..hhhhh.hhhhhhhhhhhhh.eeeeee.........hhhhhhhhhh.hhhhhhhhhhhhhhhh..........eeeee......hhhhhhhhhhhhhhhhhhh.eeeee.....hhhhhhhhhhhh..hhh.eee.hhhhh.hhhhhhhhhh...eeee............hhhhhhhhhhhhhhh.hhh.eee....eeee.......hhhhhhhh.....hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ojg A   3 EMVETVCGPVPVEQLGKTLIHEHFLFGYPGFQGDVTRGTFREDESLRVAVEAAEKMKRHGIQTVVDPTPNDCGRNPAFLRRVAEETGLNIICATGYYYEGEGAPPYFQFRRLLGTAEDDIYDMFMAELTEGIADTGIKAGVIkLASSKGRITEYEKMFFRAAARAQKETGAVIITHTQEGTMGPEQAAYLLEHGADPKKIVIGHMCGNTDPDYHRKTLAYGVYIAFDRFGIQGMVGAPTDEERVRTLLALLRDGYEKQIMLSHNTVNVWLGRPFTLPEPFAEMMKNWHVEHLFVNIIPALKNEGIRDEVLEQMFIGNPAALFS 325
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142  |    152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322   
                                                                                                                                                                        145-KCX
   Legend:   → Mismatch (orange background)
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 1)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3OJG)

(-) Pfam Domains  (1, 1)

Asymmetric Unit
(-)
Clan: Amidohydrolase (126)

(-) Gene Ontology  (4, 4)

Asymmetric Unit(hide GO term definitions)
Chain A   (Q5KZU5_GEOKA | Q5KZU5)
molecular function
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0008270    zinc ion binding    Interacting selectively and non-covalently with zinc (Zn) ions.
biological process
    GO:0009056    catabolic process    The chemical reactions and pathways resulting in the breakdown of substances, including the breakdown of carbon compounds with the liberation of energy for use by the cell or organism.

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  3ojg
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  3.5.-.-
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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/TrEMBL
        Q5KZU5_GEOKA | Q5KZU5: 3orw 3tn3 3tn4 3tn5 3tn6 3tnb 4h9t 4h9u 4h9v 4h9x 4h9y 4h9z 4ha0 4wvx 5ch9

(-) Related Entries Specified in the PDB File

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